Cell type annotation diagnostics

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Documentation for package ‘scDiagnostics’ version 0.99.10

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

boxplotPCA	Plot Principal Components for Different Cell Types
calculateCategorizationEntropy	Calculate Categorization Entropy
calculateCellDistancesSimilarity	Function to Calculate Bhattacharyya Coefficients and Hellinger Distances
calculateCramerPValue	Calculate Cramer Test P-Values for Two-Sample Comparison of Multivariate ECDFs
calculateHotellingPValue	Perform Hotelling's T-squared Test on PCA Scores for Single-cell RNA-seq Data
calculateHVGOverlap	Calculate the Overlap Coefficient for Highly Variable Genes
calculateVarImpOverlap	Compare Gene Importance Across Datasets Using Random Forest
histQCvsAnnotation	Histograms: QC Stats and Annotation Scores Visualization
plotCellTypeMDS	Plot Reference and Query Cell Types using MDS
plotCellTypePCA	Plot Principal Components for Different Cell Types
plotGeneExpressionDimred	Visualize gene expression on a dimensional reduction plot
plotGeneSetScores	Visualization of gene sets or pathway scores on dimensional reduction plot
plotMarkerExpression	Plot gene expression distribution from overall and cell type-specific perspective
plotPairwiseDistancesDensity	Pairwise Distance Analysis and Density Visualization
plotQCvsAnnotation	Scatter plot: QC stats vs Cell Type Annotation Scores
plotWassersteinDistance	Density Plot of Wasserstein Distances Under Null Distribution
projectPCA	Project Query Data Onto PCA Space of Reference Data
projectSIR	Project Query Data Onto SIR Space of Reference Data